description: This profile defines the Genomics constraints and extensions on the UK Core FHIR resource [Specimen](https://fhir.hl7.org.uk/StructureDefinition/UKCore-Specimen).
package_name: uk.nhsengland.genomics.r4
derivation: constraint
name: NHSEngland_Specimen_Genomics
type: Specimen
elements:
  request:
    type: Reference
    refers: ['https://fhir.nhs.uk/StructureDefinition/NHSEngland-ServiceRequest-Genomics']
    index: 21
  receivedTime: {index: 19}
  processing:
    index: 29
    elements:
      procedure:
        elements:
          coding:
            index: 30
            slicing:
              rules: open
              discriminator:
              - {path: system, type: pattern}
              min: null
              slices:
                codingSnomedCT:
                  match: {system: 'http://snomed.info/sct'}
                  schema:
                    index: 31
                    elements:
                      system:
                        pattern: {type: Uri, value: 'http://snomed.info/sct'}
                        index: 32
  parent:
    type: Reference
    refers: ['https://fhir.nhs.uk/StructureDefinition/NHSEngland-Specimen-Genomics']
    index: 20
  type: {index: 17}
  extension:
    index: 0
    slicing:
      slices:
        sampleCategory:
          match: {}
          schema: {index: 0}
  status: {index: 16}
  condition: {index: 35}
  container:
    index: 33
    extensions:
      specimenContainerLocationR5: {url: 'http://hl7.org/fhir/5.0/StructureDefinition/extension-Specimen.container.location', type: Extension, index: 34}
    elements:
      extension:
        type: Extension
        url: http://hl7.org/fhir/5.0/StructureDefinition/extension-Specimen.container.location
        index: 34
        slicing:
          slices:
            specimenContainerLocationR5:
              match: {}
              schema: {type: Extension, url: 'http://hl7.org/fhir/5.0/StructureDefinition/extension-Specimen.container.location', index: 34}
  identifier:
    index: 1
    slicing:
      rules: open
      discriminator:
      - {path: system, type: pattern}
      min: 1
      slices:
        identifierGMSSpecimen:
          match: {system: 'https://fhir.nhs.uk/Id/GMSSpecimen'}
          schema:
            index: 2
            elements:
              use: {index: 3}
              type: {index: 4}
              system:
                pattern: {type: Uri, value: 'https://fhir.nhs.uk/Id/GMSSpecimen'}
                index: 5
              value: {index: 6}
              period: {index: 7}
              assigner: {index: 8}
            required: [value, system]
        localIdentifier:
          match: {system: 'https://fhir.nhs.uk/local-identifier/specimen'}
          schema:
            index: 9
            elements:
              system:
                pattern: {type: Uri, value: 'https://fhir.nhs.uk/local-identifier/specimen'}
                index: 10
              value: {index: 11}
              assigner:
                index: 12
                elements:
                  reference: {index: 13}
                  identifier:
                    pattern:
                      type: Identifier
                      value: {system: 'https://fhir.nhs.uk/Id/ods-organization-code'}
                    index: 14
                required: [identifier]
            required: [assigner, value, system]
  accessionIdentifier: {index: 15}
  collection:
    index: 22
    extensions:
      specialHandling:
        url: null
        binding: {strength: preferred, valueSet: 'https://fhir.nhs.uk/ValueSet/genomics-specimen-collection-specialhandling'}
        index: 23
    elements:
      extension:
        binding: {strength: preferred, valueSet: 'https://fhir.nhs.uk/ValueSet/genomics-specimen-collection-specialhandling'}
        index: 23
        slicing:
          slices:
            specialHandling:
              match: {}
              schema:
                binding: {strength: preferred, valueSet: 'https://fhir.nhs.uk/ValueSet/genomics-specimen-collection-specialhandling'}
                index: 23
      collector:
        type: Reference
        refers: ['https://fhir.nhs.uk/StructureDefinition/NHSEngland-PractitionerRole-Genomics']
        index: 24
      collected:
        choices: []
        index: 26
      quantity: {index: 27}
      bodySite:
        extensions:
          bodyStructureReference: {url: 'http://hl7.org/fhir/StructureDefinition/bodySite', type: Extension, isModifier: false, index: 28}
        elements:
          extension:
            type: Extension
            isModifier: false
            url: http://hl7.org/fhir/StructureDefinition/bodySite
            index: 28
            slicing:
              slices:
                bodyStructureReference:
                  match: {}
                  schema: {type: Extension, isModifier: false, url: 'http://hl7.org/fhir/StructureDefinition/bodySite', index: 28}
    required: [collected]
  subject:
    type: Reference
    refers: ['https://fhir.nhs.uk/StructureDefinition/NHSEngland-Patient-Genomics']
    index: 18
package_version: 0.6.4-pre-release
extensions:
  sampleCategory: {url: null, index: 0}
class: profile
kind: resource
url: https://fhir.nhs.uk/StructureDefinition/NHSEngland-Specimen-Genomics
base: https://fhir.hl7.org.uk/StructureDefinition/UKCore-Specimen
version: 0.3.1
required: [status, request, identifier, subject, type]